Journal of Animal Science and Technology

Korean Society of Animal Sciences and Technology (한국축산학회)
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Transcriptome sequencing reveals non-coding RNAs respond to porcine reproductive and respiratory syndrome virus and Haemophilus parasuis co-infection in Kele piglets

  • Jing Zhang (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Chunping Zhao (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Min Yao (Inspection and Testing Department, Guizhou Testing Center for Livestock and Poultry Germplasm) ;
  • Jing Qi (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Ya Tan (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Kaizhi Shi (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Jing Wang (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Sixuan Zhou (Institute of Animal Husbandry and Veterinary Science, Guizhou Academy of Agricultural Sciences) ;
  • Zhixin Li (College of Animal Science, Guizhou University)
  • Received : 2023.03.02
  • Accepted : 2023.05.13
  • Published : 2024.07.31
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Abstract

Co-infection with porcine reproductive and respiratory syndrome virus (PRRSV) and Haemophilus parasuis (HPS) has severely restricted the healthy development of pig breeding. Exploring disease resistance of non-coding RNAs in pigs co-infected with PRRSV and HPS is therefore critical to complement and elucidate the molecular mechanisms of disease resistance in Kele piglets and to innovate the use of local pig germplasm resources in China. RNA-seq of lungs from Kele piglets with single-infection of PRRSV or HPS and co-infection of both pathogens was performed. Two hundred and twenty-five differentially expressed long non-coding RNAs (DElncRNAs) and 30 DEmicroRNAs (DEmiRNAs) were identified and characterized in the PRRSV and HPS co-infection (PRRSV-HPS) group. Compared with the single-infection groups, 146 unique DElncRNAs, 17 unique DEmiRNAs, and 206 target differentially expressed genes (DEGs) were identified in the PRRSV-HPS group. The expression patterns of 20 DEmiRNAs and DElncRNAs confirmed by real-time quantitative polymerase chain reaction (RT-qPCR) were consistent with those determined by high-throughput sequencing. In the PRRSV-HPS group, the target DEGs were enriched in eight immune Gene Ontology terms relating to two unique DEmiRNAs and 16 DElncRNAs, and the unique target DEGs participated the host immune response to pathogens infection by affecting 15 immune-related Kyoto Encyclopedia of Genes and Genomes enrichment pathways. Notably, competitive endogenous RNA (ceRNA) networks of different groups were constructed, and the ssc-miR-671-5p miRNA was validated as a potential regulatory factor to regulate DTX4 and AEBP1 genes to achieve innate antiviral effects and inhibit pulmonary fibrosis by dual-luciferase reporter assays. These results provided insight into further study on the molecular mechanisms of resistance to PRRSV and HPS co-infection in Kele piglets.

Keywords

Acknowledgement

This research was funded by the funds of Guizhou Science and Technology Department (grant number [2021] 5616 and [2022] KEY032) and the youth fund of Guizhou Academy of Agricultural Sciences (grant number [2022]23).

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